Strain Fitness in Shewanella loihica PV-4 around Shew_R0001

Experiment: nitrite 200 mM

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntShew_0140 and Shew_R0001 are separated by 631 nucleotidesShew_R0001 and Shew_R0002 are separated by 57 nucleotidesShew_R0002 and Shew_R0003 are separated by 52 nucleotidesShew_R0003 and Shew_R0004 are separated by 245 nucleotides Shew_0140: Shew_0140 - RNP-1-like RNA-binding protein (RefSeq), at 149,997 to 150,455 _0140 Shew_R0001: Shew_R0001 - 16S ribosomal RNA (RefSeq), at 151,087 to 152,641 _R0001 Shew_R0002: Shew_R0002 - tRNA-Ile (RefSeq), at 152,699 to 152,775 _R0002 Shew_R0003: Shew_R0003 - tRNA-Ala (RefSeq), at 152,828 to 152,903 _R0003 Shew_R0004: Shew_R0004 - 23S ribosomal RNA (RefSeq), at 153,149 to 156,041 _R0004 Position (kb) 151 152 153Strain fitness (log2 ratio) -2 -1 0 1at 150.135 kb on + strand, within Shew_0140at 150.201 kb on - strand, within Shew_0140at 150.238 kb on + strand, within Shew_0140at 150.238 kb on + strand, within Shew_0140at 150.238 kb on + strand, within Shew_0140at 150.238 kb on + strand, within Shew_0140at 150.238 kb on + strand, within Shew_0140at 150.238 kb on + strand, within Shew_0140at 150.246 kb on - strand, within Shew_0140at 150.278 kb on + strand, within Shew_0140at 150.280 kb on + strand, within Shew_0140at 150.288 kb on - strand, within Shew_0140at 150.318 kb on - strand, within Shew_0140at 150.385 kb on + strand, within Shew_0140at 150.393 kb on - strand, within Shew_0140at 150.393 kb on - strand, within Shew_0140

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Per-strain Table

Position Strand Gene LocusTag Fraction nitrite 200 mM
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150,135 + Shew_0140 0.30 -0.2
150,201 - Shew_0140 0.44 -1.0
150,238 + Shew_0140 0.53 +1.3
150,238 + Shew_0140 0.53 -0.3
150,238 + Shew_0140 0.53 +0.0
150,238 + Shew_0140 0.53 -0.2
150,238 + Shew_0140 0.53 +1.1
150,238 + Shew_0140 0.53 -0.7
150,246 - Shew_0140 0.54 -0.3
150,278 + Shew_0140 0.61 -0.2
150,280 + Shew_0140 0.62 -0.3
150,288 - Shew_0140 0.63 -0.2
150,318 - Shew_0140 0.70 +0.1
150,385 + Shew_0140 0.85 -2.7
150,393 - Shew_0140 0.86 -0.6
150,393 - Shew_0140 0.86 -0.2

Or see this region's nucleotide sequence